Publications by authors named "Nadia D Singh"

37Publications

Genomics of recombination rate variation in temperature-evolved Drosophila melanogaster populations.

Genome Biol Evol 2020 Nov 28. Epub 2020 Nov 28.

Department of Biology, Institute of Ecology and Evolution, University of Oregon, Eugene, Oregon.

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November 2020

Wolbachia Infection Associated with Increased Recombination in .

Authors:
Nadia D Singh

G3 (Bethesda) 2019 01 9;9(1):229-237. Epub 2019 Jan 9.

Department of Biology, University of Oregon Eugene OR, 97403

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January 2019

Variation in Recombination Rate: Adaptive or Not?

Trends Genet 2017 05 27;33(5):364-374. Epub 2017 Mar 27.

Department of Biological Sciences, North Carolina State University, Raleigh, NC, USA. Electronic address:

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May 2017

Bringing PLOS Genetics Editors to Preprint Servers.

PLoS Genet 2016 12 1;12(12):e1006448. Epub 2016 Dec 1.

Department of Biology and the Integrative Program for Biological and Genome Sciences, University of North Carolina at Chapel Hill, Chapel Hill, United States of America.

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December 2016

The Genetic Architecture of Natural Variation in Recombination Rate in Drosophila melanogaster.

PLoS Genet 2016 Apr 1;12(4):e1005951. Epub 2016 Apr 1.

Program in Genetics, Department of Biological Sciences, North Carolina State University, Raleigh, North Carolina, United States of America.

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April 2016

Genetic Background, Maternal Age, and Interaction Effects Mediate Rates of Crossing Over in Drosophila melanogaster Females.

G3 (Bethesda) 2016 05 3;6(5):1409-16. Epub 2016 May 3.

Program in Genetics, Department of Biological Sciences, North Carolina State University, Raleigh, North Carolina 27695 W. M. Keck Center for Behavioral Biology, North Carolina State University, Raleigh, North Carolina 27695 Bioinformatics Research Center, North Carolina State University, Raleigh, North Carolina 27695.

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May 2016

Bias-Variance Tradeoffs in Recombination Rate Estimation.

Genetics 2016 Feb;202(2):857-9

Department of Biological Sciences, North Carolina State University, Raleigh, North Carolina 27612

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February 2016

No Evidence that Infection Alters Global Recombination Rate in House Mice.

PLoS One 2015 9;10(11):e0142266. Epub 2015 Nov 9.

Department of Biological Sciences, North Carolina State University, Raleigh, North Carolina, United States of America.

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June 2016

Tetracycline-exposed Drosophila melanogaster males produce fewer offspring but a relative excess of sons.

Ecol Evol 2015 Aug 14;5(15):3130-9. Epub 2015 Jul 14.

Department of Biological Sciences, North Carolina State University Raleigh, North Carolina.

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August 2015

Increased exposure to acute thermal stress is associated with a non-linear increase in recombination frequency and an independent linear decrease in fitness in Drosophila.

BMC Evol Biol 2015 Aug 27;15:175. Epub 2015 Aug 27.

Department of Biological Sciences, North Carolina State University, Campus Box 7614, Raleigh, NC, 27695, USA.

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August 2015

Positive and purifying selection on the Drosophila Y chromosome.

Mol Biol Evol 2014 Oct 27;31(10):2612-23. Epub 2014 Jun 27.

Department of Molecular Biology and Genetics, Cornell University.

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October 2014

Do males matter? Testing the effects of male genetic background on female meiotic crossover rates in Drosophila melanogaster.

Evolution 2014 09 20;68(9):2718-26. Epub 2014 Jun 20.

Department of Biological Sciences, North Carolina State University, Raleigh, North Carolina, 27695.

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September 2014

Population genomic analysis reveals no evidence for GC-biased gene conversion in Drosophila melanogaster.

Mol Biol Evol 2014 Feb 9;31(2):425-33. Epub 2013 Nov 9.

Department of Biological Sciences, Program in Genetics, North Carolina State University.

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February 2014

Fine-scale heterogeneity in crossover rate in the garnet-scalloped region of the Drosophila melanogaster X chromosome.

Genetics 2013 Jun 14;194(2):375-87. Epub 2013 Feb 14.

Department of Genetics, North Carolina State University, Raleigh, NC 27695, USA.

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June 2013

Inferences of demography and selection in an African population of Drosophila melanogaster.

Genetics 2013 Jan 26;193(1):215-28. Epub 2012 Oct 26.

Department of Genetics, North Carolina State University, Raleigh, NC 27695, USA.

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January 2013

Classical genetics meets next-generation sequencing: uncovering a genome-wide recombination map in Drosophila melanogaster.

Authors:
Nadia D Singh

PLoS Genet 2012 11;8(10):e1003024. Epub 2012 Oct 11.

Department of Genetics, North Carolina State University, Raleigh, North Carolina, USA.

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March 2013

Impact of genetic architecture on the relative rates of X versus autosomal adaptive substitution.

Mol Biol Evol 2012 Aug 2;29(8):1933-42. Epub 2012 Feb 2.

Department of Molecular Biology and Genetics, Cornell University, USA.

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August 2012

On the scent of pleiotropy.

Proc Natl Acad Sci U S A 2012 Jan 22;109(1):5-6. Epub 2011 Dec 22.

Department of Genetics, North Carolina State University, Raleigh, NC 27695, USA.

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January 2012

Drosophila melanogaster recombination rate calculator.

Gene 2010 Sep 7;463(1-2):18-20. Epub 2010 May 7.

Department of Biology 371 Serra St.,Stanford University Stanford CA 94305-3020, USA.

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September 2010

Genomic mutation rates: what high-throughput methods can tell us.

Bioessays 2009 Sep;31(9):912-20

Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853-2703, USA.

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September 2009

Estimation of fine-scale recombination intensity variation in the white-echinus interval of D. melanogaster.

J Mol Evol 2009 Jul 6;69(1):42-53. Epub 2009 Jun 6.

Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.

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July 2009

Strong evidence for lineage and sequence specificity of substitution rates and patterns in Drosophila.

Mol Biol Evol 2009 Jul 7;26(7):1591-605. Epub 2009 Apr 7.

Department of Molecular Biology and Genetics, Cornell University.

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July 2009

Evolution of protein-coding genes in Drosophila.

Trends Genet 2008 Mar 4;24(3):114-23. Epub 2008 Feb 4.

Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY 14853, USA.

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March 2008

Contrasting the efficacy of selection on the X and autosomes in Drosophila.

Mol Biol Evol 2008 Feb 13;25(2):454-67. Epub 2007 Dec 13.

Department of Molecular Biology and Genetics, Cornell University, USA.

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February 2008

Patterns of mutation and selection at synonymous sites in Drosophila.

Mol Biol Evol 2007 Dec 13;24(12):2687-97. Epub 2007 Nov 13.

Department of Molecular Biology and Genetics, Cornell University, Ithaca, USA.

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December 2007

Evolution of genes and genomes on the Drosophila phylogeny.

Authors:
Andrew G Clark Michael B Eisen Douglas R Smith Casey M Bergman Brian Oliver Therese A Markow Thomas C Kaufman Manolis Kellis William Gelbart Venky N Iyer Daniel A Pollard Timothy B Sackton Amanda M Larracuente Nadia D Singh Jose P Abad Dawn N Abt Boris Adryan Montserrat Aguade Hiroshi Akashi Wyatt W Anderson Charles F Aquadro David H Ardell Roman Arguello Carlo G Artieri Daniel A Barbash Daniel Barker Paolo Barsanti Phil Batterham Serafim Batzoglou Dave Begun Arjun Bhutkar Enrico Blanco Stephanie A Bosak Robert K Bradley Adrianne D Brand Michael R Brent Angela N Brooks Randall H Brown Roger K Butlin Corrado Caggese Brian R Calvi A Bernardo de Carvalho Anat Caspi Sergio Castrezana Susan E Celniker Jean L Chang Charles Chapple Sourav Chatterji Asif Chinwalla Alberto Civetta Sandra W Clifton Josep M Comeron James C Costello Jerry A Coyne Jennifer Daub Robert G David Arthur L Delcher Kim Delehaunty Chuong B Do Heather Ebling Kevin Edwards Thomas Eickbush Jay D Evans Alan Filipski Sven Findeiss Eva Freyhult Lucinda Fulton Robert Fulton Ana C L Garcia Anastasia Gardiner David A Garfield Barry E Garvin Greg Gibson Don Gilbert Sante Gnerre Jennifer Godfrey Robert Good Valer Gotea Brenton Gravely Anthony J Greenberg Sam Griffiths-Jones Samuel Gross Roderic Guigo Erik A Gustafson Wilfried Haerty Matthew W Hahn Daniel L Halligan Aaron L Halpern Gillian M Halter Mira V Han Andreas Heger LaDeana Hillier Angie S Hinrichs Ian Holmes Roger A Hoskins Melissa J Hubisz Dan Hultmark Melanie A Huntley David B Jaffe Santosh Jagadeeshan William R Jeck Justin Johnson Corbin D Jones William C Jordan Gary H Karpen Eiko Kataoka Peter D Keightley Pouya Kheradpour Ewen F Kirkness Leonardo B Koerich Karsten Kristiansen Dave Kudrna Rob J Kulathinal Sudhir Kumar Roberta Kwok Eric Lander Charles H Langley Richard Lapoint Brian P Lazzaro So-Jeong Lee Lisa Levesque Ruiqiang Li Chiao-Feng Lin Michael F Lin Kerstin Lindblad-Toh Ana Llopart Manyuan Long Lloyd Low Elena Lozovsky Jian Lu Meizhong Luo Carlos A Machado Wojciech Makalowski Mar Marzo Muneo Matsuda Luciano Matzkin Bryant McAllister Carolyn S McBride Brendan McKernan Kevin McKernan Maria Mendez-Lago Patrick Minx Michael U Mollenhauer Kristi Montooth Stephen M Mount Xu Mu Eugene Myers Barbara Negre Stuart Newfeld Rasmus Nielsen Mohamed A F Noor Patrick O'Grady Lior Pachter Montserrat Papaceit Matthew J Parisi Michael Parisi Leopold Parts Jakob S Pedersen Graziano Pesole Adam M Phillippy Chris P Ponting Mihai Pop Damiano Porcelli Jeffrey R Powell Sonja Prohaska Kim Pruitt Marta Puig Hadi Quesneville Kristipati Ravi Ram David Rand Matthew D Rasmussen Laura K Reed Robert Reenan Amy Reily Karin A Remington Tania T Rieger Michael G Ritchie Charles Robin Yu-Hui Rogers Claudia Rohde Julio Rozas Marc J Rubenfield Alfredo Ruiz Susan Russo Steven L Salzberg Alejandro Sanchez-Gracia David J Saranga Hajime Sato Stephen W Schaeffer Michael C Schatz Todd Schlenke Russell Schwartz Carmen Segarra Rama S Singh Laura Sirot Marina Sirota Nicholas B Sisneros Chris D Smith Temple F Smith John Spieth Deborah E Stage Alexander Stark Wolfgang Stephan Robert L Strausberg Sebastian Strempel David Sturgill Granger Sutton Granger G Sutton Wei Tao Sarah Teichmann Yoshiko N Tobari Yoshihiko Tomimura Jason M Tsolas Vera L S Valente Eli Venter J Craig Venter Saverio Vicario Filipe G Vieira Albert J Vilella Alfredo Villasante Brian Walenz Jun Wang Marvin Wasserman Thomas Watts Derek Wilson Richard K Wilson Rod A Wing Mariana F Wolfner Alex Wong Gane Ka-Shu Wong Chung-I Wu Gabriel Wu Daisuke Yamamoto Hsiao-Pei Yang Shiaw-Pyng Yang James A Yorke Kiyohito Yoshida Evgeny Zdobnov Peili Zhang Yu Zhang Aleksey V Zimin Jennifer Baldwin Amr Abdouelleil Jamal Abdulkadir Adal Abebe Brikti Abera Justin Abreu St Christophe Acer Lynne Aftuck Allen Alexander Peter An Erica Anderson Scott Anderson Harindra Arachi Marc Azer Pasang Bachantsang Andrew Barry Tashi Bayul Aaron Berlin Daniel Bessette Toby Bloom Jason Blye Leonid Boguslavskiy Claude Bonnet Boris Boukhgalter Imane Bourzgui Adam Brown Patrick Cahill Sheridon Channer Yama Cheshatsang Lisa Chuda Mieke Citroen Alville Collymore Patrick Cooke Maura Costello Katie D'Aco Riza Daza Georgius De Haan Stuart DeGray Christina DeMaso Norbu Dhargay Kimberly Dooley Erin Dooley Missole Doricent Passang Dorje Kunsang Dorjee Alan Dupes Richard Elong Jill Falk Abderrahim Farina Susan Faro Diallo Ferguson Sheila Fisher Chelsea D Foley Alicia Franke Dennis Friedrich Loryn Gadbois Gary Gearin Christina R Gearin Georgia Giannoukos Tina Goode Joseph Graham Edward Grandbois Sharleen Grewal Kunsang Gyaltsen Nabil Hafez Birhane Hagos Jennifer Hall Charlotte Henson Andrew Hollinger Tracey Honan Monika D Huard Leanne Hughes Brian Hurhula M Erii Husby Asha Kamat Ben Kanga Seva Kashin Dmitry Khazanovich Peter Kisner Krista Lance Marcia Lara William Lee Niall Lennon Frances Letendre Rosie LeVine Alex Lipovsky Xiaohong Liu Jinlei Liu Shangtao Liu Tashi Lokyitsang Yeshi Lokyitsang Rakela Lubonja Annie Lui Pen MacDonald Vasilia Magnisalis Kebede Maru Charles Matthews William McCusker Susan McDonough Teena Mehta James Meldrim Louis Meneus Oana Mihai Atanas Mihalev Tanya Mihova Rachel Mittelman Valentine Mlenga Anna Montmayeur Leonidas Mulrain Adam Navidi Jerome Naylor Tamrat Negash Thu Nguyen Nga Nguyen Robert Nicol Choe Norbu Nyima Norbu Nathaniel Novod Barry O'Neill Sahal Osman Eva Markiewicz Otero L Oyono Christopher Patti Pema Phunkhang Fritz Pierre Margaret Priest Sujaa Raghuraman Filip Rege Rebecca Reyes Cecil Rise Peter Rogov Keenan Ross Elizabeth Ryan Sampath Settipalli Terry Shea Ngawang Sherpa Lu Shi Diana Shih Todd Sparrow Jessica Spaulding John Stalker Nicole Stange-Thomann Sharon Stavropoulos Catherine Stone Christopher Strader Senait Tesfaye Talene Thomson Yama Thoulutsang Dawa Thoulutsang Kerri Topham Ira Topping Tsamla Tsamla Helen Vassiliev Andy Vo Tsering Wangchuk Tsering Wangdi Michael Weiand Jane Wilkinson Adam Wilson Shailendra Yadav Geneva Young Qing Yu Lisa Zembek Danni Zhong Andrew Zimmer Zac Zwirko David B Jaffe Pablo Alvarez Will Brockman Jonathan Butler CheeWhye Chin Sante Gnerre Manfred Grabherr Michael Kleber Evan Mauceli Iain MacCallum

Nature 2007 Nov;450(7167):203-18

Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York 14853, USA.

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November 2007

Similar levels of X-linked and autosomal nucleotide variation in African and non-African populations of Drosophila melanogaster.

BMC Evol Biol 2007 Oct 25;7:202. Epub 2007 Oct 25.

Department of Biological Sciences, Stanford University, Stanford, CA 94305 USA.

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October 2007

Minor shift in background substitutional patterns in the Drosophila saltans and willistoni lineages is insufficient to explain GC content of coding sequences.

BMC Biol 2006 Oct 18;4:37. Epub 2006 Oct 18.

Department of Biological Sciences, Stanford University, 371 Serra Mall, Stanford, CA 94305, USA.

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October 2006

Codon bias and noncoding GC content correlate negatively with recombination rate on the Drosophila X chromosome.

J Mol Evol 2005 Sep 21;61(3):315-24. Epub 2005 Jul 21.

Department of Biological Sciences, Stanford University, 371 Serra Mall, Stanford, California, 90305-5020, USA.

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September 2005

X-linked genes evolve higher codon bias in Drosophila and Caenorhabditis.

Genetics 2005 Sep 18;171(1):145-55. Epub 2005 Jun 18.

Stanford University, Stanford, California 94305, USA.

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September 2005

Genomic heterogeneity of background substitutional patterns in Drosophila melanogaster.

Genetics 2005 Feb 1;169(2):709-22. Epub 2004 Nov 1.

Department of Biological Sciences, Stanford University, Stanford, California 94305-5020, USA.

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February 2005

Rapid sequence turnover at an intergenic locus in Drosophila.

Mol Biol Evol 2004 Apr 22;21(4):670-80. Epub 2004 Jan 22.

Department of Biological Sciences, Stanford University, Stanford, California, USA.

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April 2004